You can receive data (results) in any format you wish. However, if you have no specific requirements, you will receive from us the following standard sequencing outputs:

Illumina technology

Data

• Single-end sequencing – 1 individual FASTQ file for each sub-library (i.e. each index or index combination)
• Paired-end sequencing – 2 individual FASTQ files (Mate1.fastq and Mate2.fastq) for each sub-library (i.e. each index or index combination)
• Data will be de-multiplexed based on adaptor index combination and compressed in .gz format.

Reports

• Sample QC report (passed/not passed, chemistry used and parameters measured)
• Library QC report (passed/not passed, chemistry used and parameters measured)
• Sequencing report (basic statistics, chemistry used)
• Raw data processing description
• MultiQC report (html format)

PacBio technology

Data

• CLR mode (Continuous Long Read) - CLR reads in BAM and fastq format
• CCS mode (Circular Consensus Sequencing) – HiFi reads in BAM and fastq format
• Data will be de-multiplexed according to assigned SMRT adaptor indexes, accompanied with index data file .pbi (e.g. demux.subreads.bam + demux.subreads.bam.pbi and demux.CCS.bam + demux.CCS.bam.pbi)

Reports

• Sample QC report (passed/not passed, chemistry used and parameters measured)
• Library QC report (passed/not passed, chemistry used and parameters measured)
• PacBio SMRT sequencing report (basic statistical data - count of bases and reads, mean read length, N50)

Oxford Nanopore technology

Data

• Data in fast5 format (raw data) as follows:
  • fast5_pass - raw reads before basecalling, which passed quality control
• Data in FASTQ format as follows:
  • fastq_pass - .fastq passing quality control

Reports

• Sample QC report (passed/not passed, chemistry used and parameters measured)
• Library QC report (passed/not passed, chemistry used and parameters measured)
• Sequencing report (basic statistics, chemistry used)
• Raw data processing description
• QC report (html format)

Please notice that our bioinformaticians can provide any data output you may need including development of custom data analysis pipelines. For more information please contact us.